eulertx Goto Github PK

aging

Epigenomic enrichment analysis of age-related genomic regions

alphafold

Open source code for AlphaFold.

amp-primer-design-1

ampliconarchitect

AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current version, AA takes as input next generation sequencing reads (paired-end Illumina reads) mapped to the hg19/GrCH37 reference sequence and one or more regions of interest. This is development version. Please "watch" this repository for production release and methods manuscript soon.

awesome-cancer-variant-databases

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

awesome-cancerevolution

bafextract

bed

Bayesian Epiallele Detection (BED)

bert-rbp

bio

Bioinformatic infrastructure libraries

biscuit

BISuilfite-seq CUI Toolkit

brilia

B cell receptor repertoire annotation and lineage construction tool

casper

cb_sniffer

mutation(barcode) caller for 10x single cell data

celfie

cfDNA cell type of origin estimation

cellid

Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.

cfdna

Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA

cgpbattenberg

Battenberg algorithm and associated implementation script

charger

Characterization of Germline variants

chromwave

chromwaver

R package to predict nucleosome(/TF) occupancy from DNA sequence using pre-trained chromWave models.

circle_finder

Micro DNA identification

clonevol

Inferring and visualizing clonal evolution in multi-sample cancer sequencing

clusteratac

a cancer classification tool based on ATAC-seq profiles

cnmf

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

cnn_smoothie

cnt-md

Software for inferring the copy-number profiles of tumor clones and their evolution from fractional copy numbers obtained from multi-sample bulk sequencing data.

cortexcelldeconv

cosmic.cancer.gene.census

A R package with common functions for annotating and filtering mutation data using the COSMIC cancer gene census

cpg-transformer

CpG Transformer for imputation of single-cell methylomes